PSORTb v3.0 (Gram-negative)

Running PSORTb v3.0 on GFF1288 (734 amino acids)

SeqID: GFF1288 
  Analysis Report:
    CMSVM-            Unknown                       [No details]
    CytoSVM-          Unknown                       [No details]
    ECSVM-            Unknown                       [No details]
    ModHMM-           Unknown                       [No internal helices found]
    Motif-            Unknown                       [No motifs found]
    OMPMotif-         Unknown                       [No motifs found]
    OMSVM-            Unknown                       [No details]
    PPSVM-            Unknown                       [No details]
    Profile-          Unknown                       [No matches to profiles found]
    SCL-BLAST-        CytoplasmicMembrane           [matched 118508: Cytoplasmic membrane integral membrane protein]
    SCL-BLASTe-       Unknown                       [No matches against database]
    Signal-           Unknown                       [No signal peptide detected]
  Localization Scores:
    CytoplasmicMembrane    9.82
    Cytoplasmic            0.15
    OuterMembrane          0.01
    Periplasmic            0.01
    Extracellular          0.01
  Final Prediction:
    CytoplasmicMembrane    9.82

-------------------------------------------------------------------------------

Other sequence analysis tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Search structures

Predict transmembrane helices and signal peptides: Phobius

Check the current SEED with FIGfam search

Find homologs in the ENIGMA genome browser

Input

>GFF1288
MAMNRRNFLKVSAGASGSLMVSITLPGCAGIQTGYEPDTGEWRPDAWLELTADDEVFFTL
ARVEMGQGTYTGLTTLIAEELEIQPERITPRFAPVAPEYRNPLYKLQLTGGSTSVATSWE
PLRTAGAEARQMLVMAAARVWNVEATECRASEGRVVHPNGIDSMAYGQLVELAAKEVLRG
DIALKPQSEWKYIGKQRGKLDARAKSTGTAVYGIDVDLPDMVYGVVSRPPRRGGRVRDFN
ADQVRAMTGVLDVFKIERGVAVVADKYWRARKAQDALKIDWDFSDAVSLSTGDVFDSYRA
AADDDPGESERSEGSFASAMEEGDRVVEAEYAQPYLAHATLEPMNATAWYREDGMEVWAP
TQAPDLGRIAAARVTNLGPDDITINTTFLGGGFGRRLTQDYIEEAAAVAYRVGRPVKVIW
SREEDTRHDLYRPAMLHRMKASLSGAELKGWHHQIVGPQILDWYVRNAAPAQYPWAPKFM
YDTLGSVGLMAEGIATPKDHSAIEGAIEYPYRVPNIDIRHTHTDPGIPITWWRSVGFSHN
GFAVETFMDELAHEAGEDPYRFRRRLIAHEPRHLEVLDRVVRLADWQSPVPEGRARGLAL
FRSFGTYVAQVVEAGIENGAIRVYKVTCSVDCGQVVNPRIVEDQIEGGILFGLTAALYGE
ITLENGEVQQSNFHDYRLMRQYERPEVLVDIVASSESPTGVGEPGVPPVIPALGNALFAL
NGKRQRSLPLRANA

by Morgan Price, Arkin group
Lawrence Berkeley National Laboratory